Locus 5125

Sequence ID 2L_DroMel_CAF1
Location 14,560,283 – 14,560,381
Length 98
Max. P 0.760867
window8161 window8162

overview

Window 1

Location 14,560,283 – 14,560,381
Length 98
Sequences 4
Columns 115
Reading direction forward
Mean pairwise identity 87.20
Mean single sequence MFE -44.70
Consensus MFE -34.67
Energy contribution -35.36
Covariance contribution 0.69
Combinations/Pair 1.03
Mean z-score -1.51
Structure conservation index 0.78
SVM decision value 0.15
SVM RNA-class probability 0.608194
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14560283 98 + 22407834
GGUCUGGAUUGGAUUGGGGUCUCUGGUC-----GGGUCUUUCCAGAUCCCAAAGGCCGGCGAAGCCUUGGAGGCGGC------------GGCGGCCUAAGAGAGCAAUAAUGAUG
.(((...((((..(((((((((......-----(((....))))))))))))((((((.((..(((.....)))..)------------).)))))).......))))...))). ( -40.30)
>DroSec_CAF1 91893 110 + 1
GGUCUGGAUUGGAUUGGGGUCUCUGGUC-----GGGUCUUUCCAGAGCCCAAAGGCCGACGAUGCCUUGGAGGCGGCGGCGUCGUCGGCGGCGGCCUAAGAGAGCAAUAAUGAUG
(((((.....)))))..(.(((((((((-----(((.(((....))))))....(((((((((((((((....))).))))))))))))...))))..))))).).......... ( -47.10)
>DroSim_CAF1 79359 110 + 1
GGUCUGGAUUGGAUUGGGGUCUCUGGUC-----GGGUCUUUCCAGAGCCCAAAGGCCGACGAUGCCUUGGAGGCGGCGGCGUCGUCGGCGGCGGCCUAAGAGAGCAAUAAUGAUG
(((((.....)))))..(.(((((((((-----(((.(((....))))))....(((((((((((((((....))).))))))))))))...))))..))))).).......... ( -47.10)
>DroYak_CAF1 83330 112 + 1
GGUCUGGAUUGGAUUGGGCUCUCUGGUCGGGUCGUGUCUUUCCACAUCCCAAAGGCCCACGUUGCCUUGGAGGCGGUGGCGG---UGGCGGCGGCCUAAGAGAGCAAUAAUGAUG
(((((.(((..((........))..)))(((..(((......)))..)))..)))))...((((((((..((((.((.((..---..)).)).))))..))).)))))....... ( -44.30)
>consensus
GGUCUGGAUUGGAUUGGGGUCUCUGGUC_____GGGUCUUUCCAGAGCCCAAAGGCCGACGAUGCCUUGGAGGCGGCGGCGU___CGGCGGCGGCCUAAGAGAGCAAUAAUGAUG
(((((........(((((..((((((...............))))))))))))))))......(((((..((((.((.((.......)).)).))))..))).)).......... (-34.67 = -35.36 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,560,283 – 14,560,381
Length 98
Sequences 4
Columns 115
Reading direction reverse
Mean pairwise identity 87.20
Mean single sequence MFE -35.38
Consensus MFE -24.03
Energy contribution -25.16
Covariance contribution 1.13
Combinations/Pair 1.00
Mean z-score -2.12
Structure conservation index 0.68
SVM decision value 0.50
SVM RNA-class probability 0.760867
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14560283 98 - 22407834
CAUCAUUAUUGCUCUCUUAGGCCGCC------------GCCGCCUCCAAGGCUUCGCCGGCCUUUGGGAUCUGGAAAGACCC-----GACCAGAGACCCCAAUCCAAUCCAGACC
.......((((.(((((.((((((.(------------(..(((.....)))..)).))))))(((((.(((....))))))-----))..)))))...))))............ ( -32.40)
>DroSec_CAF1 91893 110 - 1
CAUCAUUAUUGCUCUCUUAGGCCGCCGCCGACGACGCCGCCGCCUCCAAGGCAUCGUCGGCCUUUGGGCUCUGGAAAGACCC-----GACCAGAGACCCCAAUCCAAUCCAGACC
.......((((.(((((..((.....((((((((.(((...........))).))))))))..(((((.(((....))))))-----)))))))))...))))............ ( -36.30)
>DroSim_CAF1 79359 110 - 1
CAUCAUUAUUGCUCUCUUAGGCCGCCGCCGACGACGCCGCCGCCUCCAAGGCAUCGUCGGCCUUUGGGCUCUGGAAAGACCC-----GACCAGAGACCCCAAUCCAAUCCAGACC
.......((((.(((((..((.....((((((((.(((...........))).))))))))..(((((.(((....))))))-----)))))))))...))))............ ( -36.30)
>DroYak_CAF1 83330 112 - 1
CAUCAUUAUUGCUCUCUUAGGCCGCCGCCA---CCGCCACCGCCUCCAAGGCAACGUGGGCCUUUGGGAUGUGGAAAGACACGACCCGACCAGAGAGCCCAAUCCAAUCCAGACC
..........(((((((.(((((...((..---..))(((.(((.....)))...))))))))(((((.((((......)))).)))))..)))))))................. ( -36.50)
>consensus
CAUCAUUAUUGCUCUCUUAGGCCGCCGCCG___ACGCCGCCGCCUCCAAGGCAUCGUCGGCCUUUGGGAUCUGGAAAGACCC_____GACCAGAGACCCCAAUCCAAUCCAGACC
..((...((((.......(((((((.((.......)).)).(((.....)))......)))))(((((((((((...............))))))..)))))..))))...)).. (-24.03 = -25.16 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:39 2006